Kevin Menden
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043a7d1e3c
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remove deprecated test tags (#440)
* remove deprecated test tags
* fix bowtie, gatk4/applybsqr
* fix gatk4 baserecalibrator
* fixed shovill
* fixed yara/mapper
* fixed kallistobustools/ref paths
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2021-04-13 18:03:09 +01:00 |
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suzannejin
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989fb7d5b7
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modify test path - module gatk4 + added new module gatk4/haplotypecaller (#382)
* new module: samtools/fastq
* solve conflict: pytest_software.yml
* solve linting conflicts
* solved EditorConfig linting problem
* Module samtools/fastq:
* output compressed fastq.gz file(s)
* add if conditionals for single/paired reads
* samtools/fastq: modified test.yml
* samtools/fastq: modified main.nf to avoid duplicated part of the script section
* fix README.md
* modify test path gatk4
* fix config
* Add new module gatk4/haplotypecaller
* solve check issues
* fix test.yml file
* fix test.yml gz.tbi
* Update software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/meta.yml
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/meta.yml
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update tests/software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Apply suggestions from code review
Co-authored-by: suzannejin <suzanne.jin@crg.eu>
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-03-26 12:46:46 +01:00 |
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Harshil Patel
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acb1a12a56
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Re-organise all test data (#354)
* Re-organise all test data
* Fix ECLint
* Fix ECLint agaaainn
* Now is not the time EClint
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2021-03-24 09:53:41 +00:00 |
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yocra3
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614d61dc13
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Add gatk4/applybqsr (#331)
* Add applybqsr module
* Solve problem in functions.nf
* Add to pytest
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2021-03-23 14:15:26 +01:00 |
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